Slide-tags adds spatial coordinates to single-cell sequencing measurements!. Please explore the paper, published online today in @Nature!.

Excited to share a short article I wrote describing: Slide-tags - which enables spatial single-nucleus sequencing, allowing us to dive deeper into the complexity of tissue organization. Grateful for the amazing team and support from @insitubiology and @macosko! #ToolsOfTheTrade.

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It was such a pleasure to meet everyone this past week in Heidelberg and be part of such a vibrant scientific community - thank you @EMBOFellows!.

Had fun talking about Slide-tags with @GenomeTDCC recently. Please check it out If you'd like an overview on what is is and what it can do! 🧬.

RT @dawnchenx: We are happy to share our latest long-range, programmable mutagenesis toolbox - the Helicase-Assisted Continous Editing (HAC….

RT @macosko: Slide-tags unifies the single cell + spatial genomics worlds. It solves three key problems with existing spatial methods:. 1)….

Discover more in my original preprint thread here:.

This wouldn’t have been possible without a fantastic team: @jacksonweir4*, @Naeemnadaff*, Matthew S, Vipin K, @SandeepKambham2, @RuthRaichur, Gio M, @soph_liu, @KarolBalderrama, Charles V, @Vignesh_Shan, @Luyi_T, Catherine W, Bryan I, Charles Y, @macosko†, @insitubiology†.

This was a really fun collaborative project with with: @jacksonweir4*, @Naeemnadaff*, Matthew S, Vipin K, @SandeepKambham2, @RuthRaichur, Gio M, @soph_liu, @KarolBalderrama, Charles V, @Vignesh_Shan, @Luyi_T, Catherine W, Charles Y, @macosko†, @insitubiology†.

Please check out the preprint which contains a lot more information, and links to the data! Thank you to everyone at @broadinstitute and @HSCRB who made this possible! @EMBO for funding me.

Slide-tags can profile various macromolecules, tissues, and length scales. Data can be analyzed with existing single-cell workflows too. We believe it will serve as an invaluable tool to study tissue biology.

Additionally, we enriched TCR sequences, and inferred copy number, allowing spatial investigation of the: genetic, chromatin accessibility, transcriptional, and immune, composition of this tumour.

Finally, Slide-tags barcoded nuclei can be profiled with virtually any sn-seq technology. We demonstrated this by performing Slide-tags multimodal snATAC-seq & snRNA-seq on a human metastatic melanoma.

We also profiled: mouse brain at E14, human prefrontal cortex, human tonsil, and human melanoma using Slide-tags snRNA-seq. Slide-tags allowed assignment of gene expression gradients to specific cell types, contextualization of predicted receptor-ligand interactions, and more!

We performed Slide-tags snRNA-seq on the mouse hippocampus to benchmark our technology. Slide-tags recapitulates known tissue architecture, gene expression patterns, and we confirmed that the tagging procedure did not affect the data quality.

In our approach, we “tag” nuclei within intact tissue sections with spatial barcode oligos (whose position is known). After isolation from the tissue, these nuclei can be profiled with virtually any single-nucleus sequencing technology.

Single-cell or spatial?. Our new technology - Slide-tags - allows both in the same experiment, enabling true single-cell multi-modal spatial genomics. ➡️

RT @ATJCagan: Andrew Russell on Slide-Tags: single-nucleus high-resolution multi-modal spatial genomics #AGBT23

Proud to announce that our paper is out now➡️ . We explored how malaria parasites differentiate from asexual replication into sexual cell types ♂️♀️ - please see Theo's excellent 🧵 below for more info and acknowledgements!.

Proud to announce that our paper is out now➡️ . We explored how malaria parasites differentiate from asexual replication into sexual cell types ♂️♀️ - please see Oliver's excellent 🧵 below for more info and acknowledgements!.